Variant report

Variant	rs9496361
Chromosome Location	chr6:142706166-142706167
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:142701833..142703764-chr6:142704857..142706958,3	MCF-7	breast:
2	chr6:142702058..142703651-chr6:142704530..142706199,2	MCF-7	breast:
3	chr6:142695789..142698729-chr6:142704783..142708780,4	MCF-7	breast:
4	chr6:142622324..142625256-chr6:142705073..142708395,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112414	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10080722	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10080956	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9321867	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484631	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484632	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496354	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496356	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496357	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496358	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496360	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496365	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496367	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496368	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496371	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496372	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142698600-142706200	Weak transcription	NHLF	lung
2	chr6:142698600-142733200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:142698800-142707600	Weak transcription	Placenta	Placenta
4	chr6:142698800-142707800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:142699600-142708000	Weak transcription	Pancreas	Pancrea
6	chr6:142699600-142709200	Weak transcription	Fetal Intestine Large	intestine
7	chr6:142699800-142708000	Weak transcription	Liver	Liver
8	chr6:142699800-142709000	Weak transcription	Fetal Intestine Small	intestine
9	chr6:142699800-142718600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:142699800-142719200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:142700000-142714200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:142700400-142709000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:142700400-142709000	Weak transcription	Fetal Lung	lung
14	chr6:142702200-142707800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:142703200-142708200	Strong transcription	HUVEC	blood vessel
16	chr6:142703800-142707400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:142704400-142706800	Enhancers	HSMM	muscle
18	chr6:142705000-142706400	Enhancers	Primary hematopoietic stem cells	blood
19	chr6:142705200-142706800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr6:142705400-142706600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:142705400-142706600	Enhancers	Muscle Satellite Cultured Cells	--
22	chr6:142705600-142706200	Enhancers	NHEK	skin
23	chr6:142705600-142706400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:142705600-142706400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:142705600-142706600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr6:142705600-142706600	Enhancers	NHDF-Ad	bronchial
27	chr6:142705600-142706600	Enhancers	Osteobl	bone
28	chr6:142705800-142706600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:142705800-142706600	Flanking Active TSS	A549	lung
30	chr6:142705800-142706600	Enhancers	NH-A	brain
31	chr6:142705800-142706800	Enhancers	Hela-S3	cervix
32	chr6:142705800-142713800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:142706000-142706400	Enhancers	HSMMtube	muscle
34	chr6:142706000-142706600	Genic enhancers	HepG2	liver

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